A community effort to collect a curated set of analysis pipelines built using Nextflow.

nf-core

bwa/mem -&gt; topic
<https://github.com/nf-core/modules/pull/10084>

Also, is there a reason this one wasn’t done before? All other bwa modules were already converted

Yes, I had a PR open to do it: <https://nfcore.slack.com/archives/CQY2U5QU9/p1769511892982039>, which you commented on the discussion about

I still think we should merge the sam/bam/cram output channels.
I also wonder if we directly make flags to index and/or what output type (which can be done via args currently)

Ah yes, forgot about that one :sweat_smile:  sorry